Freesurfer: Connecting the Freesurfer software with R [version 1; referees: 2 approved] Academic Article uri icon


MeSH Major

  • Brain
  • Magnetic Resonance Imaging
  • Neuroimaging


  • © 2018 Muschelli J et al. We present the package freesurfer, a set of R functions that interface with Freesurfer, a commonly-used open-source software package for processing and analyzing structural neuroimaging data, specifically T1-weighted images. The freesurfer package performs operations on nifti image objects in R using command-line functions from Freesurfer, and returns R objects back to the user. freesurfer allows users to process neuroanatomical images and provides functionality to convert and read the output of the Freesurfer pipelines more easily, including brain images, brain surfaces, and Freesurfer output tables.

publication date

  • January 2018



  • Academic Article



  • eng

PubMed Central ID

  • PMC6051196

Digital Object Identifier (DOI)

  • 10.12688/f1000research.14361.1

PubMed ID

  • 30057753

Additional Document Info

start page

  • 599


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